Benjak A Sala C Hartkoorn RC 2015 Next-generation sequencing technologies for whole-genome sequencing of mycobacteria are rapidly becoming an attractive alternative to more traditional sequencing methods. In particular this technology is proving useful for genome-wide identification of mutations in mycobacteria (comparative genomics) as well as for de novo assembly of whole genomes. Next-generation sequencing however generates a vast quantity of data that can only be transformed into a usable and comprehensible form using bioinformatics. Here we describe the methodology one would use to prepare libraries for whole-genome sequencing, and the basic bioinformatics to identify mutations in a genome following Illumina HiSeq or MiSeq sequencing, as well as de novo genome assembly following sequencing using Pacific Biosciences (PacBio). https://sonar.ch/global/documents/163070 eng info:eu-repo/semantics/altIdentifier/doi/10.1007/978-1-4939-2450-9_1 info:eu-repo/semantics/altIdentifier/pmid/25779307 Methods in molecular biology (Clifton, N.J.). - 2015 Computational Biology Genome Genome, Bacterial Genomic Library Genomics High-Throughput Nucleotide Sequencing Mutation Mycobacterium tuberculosis Whole-genome sequencing for comparative genomics and de novo genome assembly. http://purl.org/coar/resource_type/c_6501